R: oligo packages install error
1
0
Entering edit mode
get3232 • 0
@get3232-21278
Last seen 2.2 years ago

ERROR MESSAGES

=====================================================
> BiocManager::install("oligo")
Bioconductor version 3.9 (BiocManager 1.30.4), R 3.6.1 (2019-07-05)
Installing package(s) 'oligo'
also installing the dependencies ‘RCurl’, ‘GenomeInfoDb’, ‘GenomicRanges’, ‘SummarizedExperiment’, ‘oligoClasses’

URL 'https://cloud.r-project.org/src/contrib/RCurl_1.95-4.12.tar.gz'을 시도합니다
Content type 'application/x-gzip' length 916763 bytes (895 KB)
==================================================
downloaded 895 KB

URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/GenomeInfoDb_1.20.0.tar.gz'을 시도합니다
Content type 'application/x-gzip' length 3405894 bytes (3.2 MB)
==================================================
downloaded 3.2 MB

URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/GenomicRanges_1.36.0.tar.gz'을 시도합니다
Content type 'application/x-gzip' length 1160485 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/SummarizedExperiment_1.14.0.tar.gz'을 시도합니다
Content type 'application/x-gzip' length 1488171 bytes (1.4 MB)
==================================================
downloaded 1.4 MB

URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/oligoClasses_1.46.0.tar.gz'을 시도합니다
Content type 'application/x-gzip' length 372116 bytes (363 KB)
==================================================
downloaded 363 KB

URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/oligo_1.48.0.tar.gz'을 시도합니다
Content type 'application/x-gzip' length 28421048 bytes (27.1 MB)
==================================================
downloaded 27.1 MB

* installing *source* package ‘RCurl’ ...
** 패키지 ‘RCurl’는 성공적으로 압축해제되었고, MD5 sums 이 확인되었습니다
** using staged installation
checking for curl-config... no
Cannot find curl-config
ERROR: configuration failed for package ‘RCurl’
* removing ‘/home/cy/R/x86_64-pc-linux-gnu-library/3.6/RCurl’
ERROR: dependency ‘RCurl’ is not available for package ‘GenomeInfoDb’
* removing ‘/home/cy/R/x86_64-pc-linux-gnu-library/3.6/GenomeInfoDb’
ERROR: dependency ‘GenomeInfoDb’ is not available for package ‘GenomicRanges’
* removing ‘/home/cy/R/x86_64-pc-linux-gnu-library/3.6/GenomicRanges’
ERROR: dependencies ‘GenomicRanges’, ‘GenomeInfoDb’ are not available for package ‘SummarizedExperiment’
* removing ‘/home/cy/R/x86_64-pc-linux-gnu-library/3.6/SummarizedExperiment’
ERROR: dependencies ‘GenomicRanges’, ‘SummarizedExperiment’ are not available for package ‘oligoClasses’
* removing ‘/home/cy/R/x86_64-pc-linux-gnu-library/3.6/oligoClasses’
ERROR: dependency ‘oligoClasses’ is not available for package ‘oligo’
* removing ‘/home/cy/R/x86_64-pc-linux-gnu-library/3.6/oligo’

The downloaded source packages are in
    ‘/tmp/RtmpmnZOmY/downloaded_packages’
installation path not writeable, unable to update packages: C50, Cubist, data.table, e1071, Formula, glue, inum, libcoin,
  magrittr, mvtnorm, partykit, plyr, Rcpp, reshape2, RInside, RSNNS, stringi, stringr, xgboost, boot, class, codetools,
  foreign, KernSmooth, lattice, MASS, Matrix, mgcv, nnet, spatial, survival
경고메시지(들): 
1: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
  installation of package ‘RCurl’ had non-zero exit status
2: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
  installation of package ‘GenomeInfoDb’ had non-zero exit status
3: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
  installation of package ‘GenomicRanges’ had non-zero exit status
4: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
  installation of package ‘SummarizedExperiment’ had non-zero exit status
5: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
  installation of package ‘oligoClasses’ had non-zero exit status
6: In install.packages(pkgs = doing, lib = lib, repos = repos, ...) :
  installation of package ‘oligo’ had non-zero exit status
===================================================================
version : 3.6.1

How can I fixed it? please, check this error quickly, Thank you so much

oligo packages error • 497 views
ADD COMMENT
0
Entering edit mode
@martin-morgan-1513
Last seen 10 weeks ago
United States

Start with the first error, and the first package that fails

** using staged installation
checking for curl-config... no
Cannot find curl-config
ERROR: configuration failed for package ‘RCurl’

Your system requires the system dependency libcurl, and it needs the development headers for that. The first two answer to this StackOverflow question might point you in the right direction; we would need to know the version of linux you're using to be more helpful.

ADD COMMENT

Login before adding your answer.

Traffic: 310 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6